Galaxy Server administration - Ansible
Resources related to configuration and maintenance of Galaxy servers
Questions of the tutorial:
- Why Ansible?
- How and when to use Ansible?
- How to write a role?
- How to leverage community build roles?
Objectives of the tutorial:
- Learn Ansible basics
- Write a simple role
- Install a...
Galaxy Server administration - Ansible
http://galaxyproject.github.io/training-material/topics/admin/tutorials/ansible/tutorial.html
http://tess.elixir-uk.org/materials/galaxy-server-administration-ansible
Resources related to configuration and maintenance of Galaxy servers
Questions of the tutorial:
- Why Ansible?
- How and when to use Ansible?
- How to write a role?
- How to leverage community build roles?
Objectives of the tutorial:
- Learn Ansible basics
- Write a simple role
- Install a role from Ansible Galaxy
erasche
Data Manipulation - Collections: Rule Based Uploader
A collection of microtutorials explaining data manipulation within Galaxy
Questions of the tutorial:
- How to use the rule based uploader to create complex collections
Objectives of the tutorial:
- Learn about the Rule Based Uploader
Data Manipulation - Collections: Rule Based Uploader
http://galaxyproject.github.io/training-material/topics/galaxy-data-manipulation/tutorials/upload-rules/tutorial.html
http://tess.elixir-uk.org/materials/data-manipulation-collections-rule-based-uploader
A collection of microtutorials explaining data manipulation within Galaxy
Questions of the tutorial:
- How to use the rule based uploader to create complex collections
Objectives of the tutorial:
- Learn about the Rule Based Uploader
jmchilton
erasche
Contributing to the Galaxy Training Material - Creating a new tutorial - Slides
Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them...
Contributing to the Galaxy Training Material - Creating a new tutorial - Slides
http://galaxyproject.github.io/training-material/topics/contributing/tutorials/create-new-tutorial-slides/slides.html
http://tess.elixir-uk.org/materials/contributing-to-the-galaxy-training-material-creating-a-new-tutorial-slides
Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them accessible to researchers, it is scalable. In 2016, the Galaxy Training Network decide to set up a new infrastructure for delivering easily Galaxy related training material. The idea was to develop something open and online based on a community effort, as always in Galaxy.
Questions of the tutorial:
- How to format slides?
- How do we add presenter notes?
- How to use the features of the slide show tool?
- What sort of content should be included in slides?
Objectives of the tutorial:
- Create a new set of slides
- Add presenter comments
erasche
bebatut
shiltemann
Development in Galaxy - Galaxy Interactive Environments
Galaxy is an open-source project. Everyone can contribute to its development with core Galaxy development, integration of softwares in Galaxy environment, ...
Questions of the tutorial:
- What are Galaxy Interactive Environments (GIEs)?
- How to enable GIEs in Galaxy?
- How to develop your own...
Development in Galaxy - Galaxy Interactive Environments
http://galaxyproject.github.io/training-material/topics/dev/tutorials/interactive-environments/slides.html
http://tess.elixir-uk.org/materials/development-in-galaxy-galaxy-interactive-environments
Galaxy is an open-source project. Everyone can contribute to its development with core Galaxy development, integration of softwares in Galaxy environment, ...
Questions of the tutorial:
- What are Galaxy Interactive Environments (GIEs)?
- How to enable GIEs in Galaxy?
- How to develop your own GIE?
Objectives of the tutorial:
- Implement a Hello-World Galaxy Interactive Environment
shiltemann
bgruening
erasche
Galaxy Server administration - Advanced customisation of a Galaxy instance
Resources related to configuration and maintenance of Galaxy servers
Galaxy Server administration - Advanced customisation of a Galaxy instance
http://galaxyproject.github.io/training-material/topics/admin/tutorials/advanced-galaxy-customisation/slides.html
http://tess.elixir-uk.org/materials/galaxy-server-administration-advanced-customisation-of-a-galaxy-instance
Resources related to configuration and maintenance of Galaxy servers
bgruening
erasche
martenson
An Introduction to Mathematical Modelling
This course provides an introduction to the concepts of modelling biological systems. It is intended for biologists who have no experience in modelling but would like to know how it might apply to their area of research. The course provides a complete background to the history of modelling and...
An Introduction to Mathematical Modelling
http://www.bioinformatics.babraham.ac.uk/training.html#modelling
http://tess.elixir-uk.org/materials/an-introduction-to-mathematical-modelling
This course provides an introduction to the concepts of modelling biological systems. It is intended for biologists who have no experience in modelling but would like to know how it might apply to their area of research. The course provides a complete background to the history of modelling and the different approaches through which a biological system can be approximated by mathematical methods. The course also provides a practical introduction to the [COPASI](http://copasi.org/) modelling environment.
Nicolas Le Novère
Viji Chelliah,
Boo Virk
Quality Control in Sequencing Experiments
This course looks at the different ways in which sequencing based studies can fail and the options for visualisation and QC which allow you to identify and diagnose these failures at an early stage. It is designed to be of use to anyone who is using sequencing as part of their research, not just...
Scientific topics: Quality affairs
Keywords: Babraham Institute
Quality Control in Sequencing Experiments
http://www.bioinformatics.babraham.ac.uk/training.html#sequenceqc
http://tess.elixir-uk.org/materials/quality-control-in-sequencing-experiments
This course looks at the different ways in which sequencing based studies can fail and the options for visualisation and QC which allow you to identify and diagnose these failures at an early stage. It is designed to be of use to anyone who is using sequencing as part of their research, not just those who are running sequencing facilities.
Simon Andrews
Laura Biggins
Boo Virk
Quality affairs
Babraham Institute
Scientific Figure Design
This course provides a practical guide to producing figures for use in reports and publications. It is a wide ranging course which looks at how to design figures to clearly and fairly represent your data, the practical aspects of graph creation, the allowable manipulation of bitmap images and...
Scientific topics: Data visualisation
Keywords: Figure design, Babraham Institute
Scientific Figure Design
http://www.bioinformatics.babraham.ac.uk/training.html#figuredesign
http://tess.elixir-uk.org/materials/scientific-figure-design
This course provides a practical guide to producing figures for use in reports and publications. It is a wide ranging course which looks at how to design figures to clearly and fairly represent your data, the practical aspects of graph creation, the allowable manipulation of bitmap images and compositing and editing of final figures.
The course will use a number of different open source software packages and is illustrated with a number of example figures adapted from common analysis tools.
Simon Andrews
Anne Segonds-Pichon
Boo Virk
Data visualisation
Figure design, Babraham Institute
